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## Package org.metaqtl

Interface Summary
IBioGenomeProperties | This interface defines both the keys and the default values of properties which can be handled by a org.thalia.bio.entity.IBioGenome.
IBioLGroupProperties | This interface defines the key of properties which can be handled by a org.thalia.bio.entity.IBioLGroup.
IBioLocusProperties | This interface defines the key of the properties which can be handled by a org.thalia.bio.entity.IBioLocus.
IMetaAlgorithm | This interface defines some methods which are common to data analysis algorithms.
IMetaQtlConstants | This interface defines some global constants which are used by several classes of the package.

Class Summary
ChromCluster | A cluster of chromosomes which share the same name inside a `MapCluster` framwork.
Chromosome | On a Chromosome there are two types of locus : Marker QTL (Quantitative Trait Loci) inside a mapping context which is defined by both the mapping framework (function and unit) and the population cross design used to build this chromosome.
CMarkerSequence | A Common marker sequence between two ordered set of markers is a sub-set of at least two markers which order is the same between the two sets (may be reverse).
EMCriteria |
EMResult |
MapCluster |
MetaChrom | A MetaChrom is the result of the merge of the members of a `ChromCluster`.
MetaDico | This class represents a dictionnary of synonyms.
MetaMap | A `MetaMap` is a bundle of `MetaChrom` objects.
MetaQtlAnalysis | A QTL meta analysis consists in a clustering of QTL positions over chromosomes for different group of traits.
MetaQtlData | QTL meta analysis first requires to gather the QTL according to the group trait they belong and then to format the QTL data into data points to perfom clustering.
MetaQtlModel |
MetaQtlResult | A `MetaQtlResult` is used to store the results of a QTL meta analysis which has been performed for a given trait group on a given chromosome.
MultiFitResult | This class represents a result of a multilinear regression analysis.
Qtl | A QTL (Quantitative Trait Loci)
QtlPartition |
Tree | This class defines a tree.
TreeNode | This class represents a node in a binary Tree obtained when applying usual hirarchical clustering methods.

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